TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv3680/-:

update plot	correlation	link to info on gene
Rv3679/-	(cc=0.6755)	info on Rv3679/-
Rv0505c/serB1	(cc=0.6554)	info on Rv0505c/serB1
Rv1421/-	(cc=0.6354)	info on Rv1421/-
Rv2837c/-	(cc=0.6279)	info on Rv2837c/-
Rv3215/entC	(cc=0.5995)	info on Rv3215/entC
Rv0998/-	(cc=0.5957)	info on Rv0998/-
Rv2966c/-	(cc=0.5688)	info on Rv2966c/-
Rv1821/secA2	(cc=0.5413)	info on Rv1821/secA2
Rv2553c/-	(cc=0.5391)	info on Rv2553c/-
Rv1856c/-	(cc=0.524)	info on Rv1856c/-

Correlation of Rv3680/- with Rv2837c/-

Normalized LFCs for Rv3680/-:
(description and provenance of datasets)

	Rv3680/-	Rv2837c/-
Fe_supp_jason_reseq	1.689	0.218
low_pH_jason_reseq	1.673	0.0
NO_jason_reseq	0.0	0.0
B6_jason_reseq	0.0	0.0
MHCII_jason_reseq	0.0	0.0
Isoniazid02	-1.072	0.0
Rifampicin4	-0.474	0.0
Ethambutol3	-0.59	0.0
Meropenem3	-0.21	0.165
Vancomycin16	-0.464	0.0
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-0.766	-3.961
hypoxia_3wks	-0.55	0.0
hypoxia_6wks	-0.288	0.0
glycerol	2.455	0.0
cholesterol	1.612	0.0
AJ	0.0	0.0
Bibs02	1.015	0.0
Bibs02c	1.822	0.0
BL6	0.0	0.0
BL6a	1.812	0.198
BXD01	0.358	0.0
BXD010	0.128	0.0
BXD011	1.109	0.0
BXD03	0.75	0.0
BXD04	0.34	0.0
BXD05	0.369	0.256
BXD06	1.035	0.0
BXD07	0.38	0.0
BXD08	0.253	0.0
BXD09	0.69	0.0
CAST	0.0	0.0
CCcont	1.765	1.3
DS01	0.83	0.0
DS02	0.217	0.0
DS04	1.301	0.0
DS0c	0.413	0.0
GP01	0.0	0.0
GP02	0.0	0.0
GP0c	0.0	0.0
NOD	0.0	0.0
NZO	0.0	0.0
PWK	0.0	0.0
H37Rv_KO_CtpC	0.162	0.0
H37Rv_KO_CtpD	0.445	0.348
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.768	0.0
H37Rv_KO_MbtN	0.691	0.691
Trans05	0.0	0.0
macrophage_unactivated	0.436	0.0
IL1	0.0	0.0
Rapamycin	0.0	0.0
Tcell	0.857	0.0
GMCSF	0.0	0.0
IFNab	0.0	0.0
IFNg	0.0	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	-2.069	-0.65
delta_Rv3594	1.895	2.14
delta_Rv3717	3.237	1.339
delta_Rv3811	2.787	2.152
delta_Rv0954	0.375	0.699
PonA1	1.599	0.819
EccD1_KO	0.635	0.316
EspI_KO	0.878	0.14
PE35_KO	0.735	-0.796
PPE68_KO	1.245	1.6
glycerol2	-0.193	0.0
lignocerate	-0.168	0.0
oleate	-0.196	0.0
phosphatidylcholine	-0.193	0.0
acetate	0.743	0.0
glucAc	0.462	0.0
Rv0950ko	-1.9	-3.302
Rv1096ko	-2.111	-2.747
Rv3684ko	-2.663	-0.881
delta_otsA_trehalose	0.895	-0.168